Region for Gene C44H4.8

This page describes one promoter-based search region.

The image shown below was created to provide context for this search region by showing a 100000 bp span of the genome, centered on this search region.

The first track shows the location of the search region in red. The last track shows known gene locations in this 100000 bp span of the genome.

This promoter-based search region is located close to a particular gene of interest, described in the table below. Click on the gene id to open a page at ensembl.org with more information about this gene.

The image shown below illustrates the location of the motifs and modules within this search region.
However, the number of modules in a region may exceed the genome browser's track limit. Thus, for each type of module (pattern), the text in the yellow box below indicates whether or not any modules of that type exist, and if so, whether or not all the modules of that type are displayed. (If it indicates that only the top 20 modules are displayed, this ranking is based on the number of instances of each module.)

User-specified filter settings do not affect the features displayed in the UCSC genome browser view.

About the patterns shown in this image:
There are no 'de novo' patterns to show.
There are no (TRANSFAC) annotation-based patterns to show.
There are no (JASPAR) annotation-based patterns to show.

Click on the image to view this region at UCSC.

This image uses the C.elegans genome assembly from Jan 2007. (UCSC ce4, WS170, Ensembl v45) and contains a number of custom tracks followed by several UCSC tracks. The custom tracks show: The long red and gray bar at the top shows the nominal 'search region' within which comparative genomics discovery methods were applied. Motif predictions were not made in coding exons and most types of repeats. In this database, the locations of masks applied to the search region are shown in gray. The numbered brown blocks are 'atomic' motifs, i.e. conserved DNA sequence motifs that were identified by discovery methods and post-processing operations. Motifs are shaded to indicate the discovery p-value; a darker motif was more significant at the discovery stage. Following the motif discovery stage, motifs were filtered by membership in co-occurring patterns, and patterns were ranked by genome-scale properties. Motifs instances that occur in highly-ranked putative regulatory modules may be more reliable predictions of functional genomic elements. The connected sets of blue boxes are co-occurring patterns, i.e. putative regulatory modules. Modules are shaded to indicate the number of times that a pattern is found in the target genome; a darker module is associated with more search regions. An pattern is called either 'de novo' or annotation-based, depending on the type of groups that appear in the pattern. (see next point) Before patterns (i.e. modules) can be identified from atomic motifs, groups of similar motifs must be found; modules are then identified as co-occurring 'group labels' that satisfy certain criteria. Such groups can be identified a) by annotating atomic motifs with known binding site resources from TRANSFAC, JASPAR or ORegAnno; or b) by 'de novo' clustering. Currently we show both types of patterns, but we consider annotation-based groups and patterns to be more reliable than 'de novo' groups and patterns. Work to improve genome-scale 'de novo' grouping is ongoing.

Showing 47 out of 47 atomic motifs.

Group(s) crtCele#(name) [p-value]	Motif craCele#	Discovery p-value	Location	Width	(+)motif	(-)motif
0 annotated groups 0 'de novo' group(s)	33167	5.92E-01	CHROMOSOME_X:14,593,077-14,593,088	12	TGCATsTwAmGT	ACkTsAwATGCA
0 annotated groups 0 'de novo' group(s)	33168	6.76E-01	CHROMOSOME_X:14,593,083-14,593,096	14	TTTCnTTTTCTATs	wATAGAAAAnGAAA
0 annotated groups 0 'de novo' group(s)	33169	4.68E-01	CHROMOSOME_X:14,593,149-14,593,158	10	AACCwTTGGT	ACCAAsGGTT
0 annotated groups 1 'de novo' group(s) 2281	33170	5.20E-01	CHROMOSOME_X:14,593,166-14,593,180	15	yTrCTCAGwAGCTGT	ACAGCTsCTGAGyAr
0 annotated groups 0 'de novo' group(s)	33171	8.48E-01	CHROMOSOME_X:14,593,178-14,593,191	14	TGnwTTTAGATTCA	TGAATCTAAAsnCA
0 annotated groups 0 'de novo' group(s)	33172	4.21E-01	CHROMOSOME_X:14,593,190-14,593,200	11	snnAAGCTAGw	sCTAGCTTnnw
0 annotated groups 0 'de novo' group(s)	33173	5.92E-01	CHROMOSOME_X:14,593,226-14,593,237	12	TTkCTmAGTrGC	GCyACTkAGmAA
0 annotated groups 1 'de novo' group(s) 1410	33174	7.88E-01	CHROMOSOME_X:14,593,238-14,593,248	11	TCCATGCATTT	AAATGCATGGA
1 annotated group(s): 40154 (Pax-5) [4.73E-06] 0 'de novo' group(s)	33175	2.80E-01	CHROMOSOME_X:14,593,280-14,593,293	14	nCGrAsTAACATAC	GTATGTTAwTyCGn
1 annotated group(s): 40154 (Pax-5) [4.73E-06] 1 'de novo' group(s) 32	33176	4.95E-01	CHROMOSOME_X:14,593,295-14,593,321	27	nCnnCsCGTrAsyAGAT...	wsGAsArAmrATCTrwT...
0 annotated groups 0 'de novo' group(s)	33177	5.90E-01	CHROMOSOME_X:14,593,328-14,593,341	14	TyACAmTCACTCyA	TrGAGTGAkTGTrA
0 annotated groups 0 'de novo' group(s)	33178	2.05E-01	CHROMOSOME_X:14,593,350-14,593,363	14	AGAGAAnTGAyTTT	AAArTCAnTTCTCT
0 annotated groups 0 'de novo' group(s)	33179	2.13E-01	CHROMOSOME_X:14,593,371-14,593,380	10	GTnAACATCT	AGATGTTnAC
0 annotated groups 1 'de novo' group(s) 1884	33180	2.59E-01	CHROMOSOME_X:14,593,383-14,593,403	21	CAnArCTTCTAGATAGA...	nAGATCTATCTAGAAGy...
0 annotated groups 0 'de novo' group(s)	33181	9.19E-01	CHROMOSOME_X:14,593,465-14,593,479	15	GTTCAnAAGTTTnwC	GsnAAACTTnTGAAC
0 annotated groups 2 'de novo' group(s) 6, 395	33182	9.10E-01	CHROMOSOME_X:14,593,487-14,593,500	14	TGCATGGAAAGTGA	TCACTTTCCATGCA
0 annotated groups 0 'de novo' group(s)	33183	8.69E-01	CHROMOSOME_X:14,593,535-14,593,550	16	AnnAGmTCTATCTAGA	TCTAGATAGAkCTnnT
0 annotated groups 3 'de novo' group(s) 25, 431, 675	33184	7.12E-01	CHROMOSOME_X:14,593,549-14,593,560	12	GAGCAGATCGTT	AACGATCTGCTC
0 annotated groups 0 'de novo' group(s)	33185	9.64E-01	CHROMOSOME_X:14,593,568-14,593,577	10	GCTCAGTAGC	GCTACTGAGC
0 annotated groups 0 'de novo' group(s)	33186	5.78E-01	CHROMOSOME_X:14,593,584-14,593,597	14	AAATGCATGGAAAG	CTTTCCATGCATTT
0 annotated groups 0 'de novo' group(s)	33187	4.74E-01	CHROMOSOME_X:14,593,614-14,593,625	12	CTATCTTCTCAT	ATGAGAAGATAG
0 annotated groups 0 'de novo' group(s)	33188	4.74E-01	CHROMOSOME_X:14,593,640-14,593,651	12	GATCTnTCTAGA	TCTAGAnAGATC
0 annotated groups 1 'de novo' group(s) 1061	33189	4.98E-01	CHROMOSOME_X:14,593,660-14,593,673	14	AwTGmATyATTGCw	sGCAATrATkCAsT
0 annotated groups 0 'de novo' group(s)	33190	1.40E-01	CHROMOSOME_X:14,593,671-14,593,678	8	GCTACTGA	TCAGTAGC
0 annotated groups 0 'de novo' group(s)	33191	9.09E-01	CHROMOSOME_X:14,593,680-14,593,699	20	yAGTTTGTTTsCTCArTnny	rnnAyTGAGwAAACAAACTr
0 annotated groups 0 'de novo' group(s)	33192	3.72E-01	CHROMOSOME_X:14,593,709-14,593,722	14	CAGAAATTCAAAAC	GTTTTGAATTTCTG
0 annotated groups 0 'de novo' group(s)	33193	4.74E-01	CHROMOSOME_X:14,593,754-14,593,765	12	ATTTAnCAAAAC	GTTTTGnTAAAT
1 annotated group(s): 50073 (RREB-1) [9.68E-05] 1 'de novo' group(s) 210	33194	7.72E-01	CHROMOSOME_X:14,593,791-14,593,804	14	CAGTTTGTTTGCTC	GAGCAAACAAACTG
0 annotated groups 1 'de novo' group(s) 2816	33195	7.72E-01	CHROMOSOME_X:14,593,810-14,593,823	14	ACAGCTACTGAGCA	TGCTCAGTAGCTGT
2 annotated group(s): 40008 (AML1) [2.54E-07] 40008 (AML1) [4.86E-07] 0 'de novo' group(s)	33196	2.94E-01	CHROMOSOME_X:14,593,836-14,593,845	10	TyCATrmATT	AATkyATGrA
0 annotated groups 0 'de novo' group(s)	33197	7.57E-01	CHROMOSOME_X:14,593,858-14,593,867	10	TGyATATAAA	TTTATATrCA
0 annotated groups 0 'de novo' group(s)	33198	7.72E-01	CHROMOSOME_X:14,593,953-14,593,966	14	AAATGAGAAGATAG	CTATCTTCTCATTT
0 annotated groups 0 'de novo' group(s)	33199	8.06E-01	CHROMOSOME_X:14,593,960-14,593,975	16	AAATGAGAAGATAGAA	TTCTATCTTCTCATTT
0 annotated groups 0 'de novo' group(s)	33200	7.12E-01	CHROMOSOME_X:14,594,008-14,594,022	15	TCCATGCATTTACAA	TTGTAAATGCATGGA
0 annotated groups 1 'de novo' group(s) 54	33201	8.56E-01	CHROMOSOME_X:14,594,034-14,594,043	10	GAGnAGAwmG	CksTCTnCTC
0 annotated groups 0 'de novo' group(s)	33202	1.40E-01	CHROMOSOME_X:14,594,049-14,594,056	8	CAGCTACT	AGTAGCTG
0 annotated groups 0 'de novo' group(s)	33203	7.12E-01	CHROMOSOME_X:14,594,696-14,594,707	12	nCCwTGCATTTr	yAAATGCAsGGn
0 annotated groups 0 'de novo' group(s)	33204	7.72E-01	CHROMOSOME_X:14,594,710-14,594,723	14	nTGAGAAnmTwGAn	nTCsAknTTCTCAn
0 annotated groups 0 'de novo' group(s)	33205	8.46E-01	CHROMOSOME_X:14,594,719-14,594,732	14	yTGAGCwAnCAwAC	GTsTGnTsGCTCAr
0 annotated groups 0 'de novo' group(s)	33206	9.62E-01	CHROMOSOME_X:14,594,742-14,594,753	12	yCCwTTCTTTTA	TAAAAGAAsGGr
1 annotated group(s): 40045 (COUP) [4.93E-06] 0 'de novo' group(s)	33207	5.91E-01	CHROMOSOME_X:14,594,761-14,594,772	12	TCyTTCTTCTCC	GGAGAAGAArGA
1 annotated group(s): 50051 (Irf-2) [8.65E-06] 1 'de novo' group(s) 56	33208	6.82E-02	CHROMOSOME_X:14,594,848-14,594,879	32	TTTCACTTTCCATGCAT...	GTGGAGTGATTGTAAAT...
0 annotated groups 0 'de novo' group(s)	33209	6.50E-01	CHROMOSOME_X:14,594,891-14,594,898	8	GCAGAACk	mGTTCTGC
0 annotated groups 0 'de novo' group(s)	33210	4.68E-01	CHROMOSOME_X:14,594,895-14,594,904	10	TGCTCGGAAG	CTTCCGAGCA
1 annotated group(s): 40016 (AR) [9.89E-06] 2 'de novo' group(s) 895, 2296	33211	1.00E-08	CHROMOSOME_X:14,594,921-14,594,972	52	CCTCCCGTGAGCAGATC...	AAGAGAACAGCTACTGA...
0 annotated groups 0 'de novo' group(s)	33214	8.06E-01	CHROMOSOME_X:14,594,978-14,594,985	8	GCAGATCG	CGATCTGC
1 annotated group(s): 40073 (Evi-1) [1.52E-06] 0 'de novo' group(s)	33215	2.93E-01	CHROMOSOME_X:14,595,026-14,595,069	44	CTTTTCTATCTTCTCAT...	TCnACCAAyGGTTTTGA...